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mwang87mwang87
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fixing download
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Lines changed: 28 additions & 21 deletions

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‎tests/get_data.sh‎

Lines changed: 28 additions & 21 deletions
Original file line numberDiff line numberDiff line change
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mkdir -p data
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cd data
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wget --no-verbose --output-document=GNPS00002_A3_p.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A3_p.mzML"
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wget --no-verbose --output-document=GNPS00002_A3_p.mzml "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A3_p.mzML"
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wget --no-verbose --output-document=GNPS00002_A10_n.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A10_n.mzML"
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wget --no-verbose --output-document=QC_0.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000085852/ccms_peak/QC_raw/QC_0.mzML"
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wget --no-verbose --output-document=bld_plt1_07_120_1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000085944/ccms_peak/raw_data/bld_plt1_07_120_1.mzML"
8-
wget --no-verbose --output-document=NS_1x_test.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000087352/updates/2021-05-03_allegraaron_95d2215b/peak/NS_1x_test.mzML"
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wget --no-verbose --output-document=JB_182_2_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084289/ccms_peak/JB_182_2_fe.mzML"
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wget --no-verbose --output-document=S_N2_neutral_Zn.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083387/updates/2019-11-12_allegraaron_e893cb7e/peak/S_N2_neutral_Zn.mzML"
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wget --no-verbose --output-document=gnps-library.json "https://external.gnps2.org/gnpslibrary/GNPS-LIBRARY.json"
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wget --no-verbose --tries=3 --waitretry=5 --output-document=specs_ms.mgf "https://massive.ucsd.edu/ProteoSAFe/DownloadResultFile?task=5ecfcf81cb3c471698995b194d8246a0&block=main&file=spectra/specs_ms.mgf"
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wget --no-verbose --output-document=1810E-II.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084691/ccms_peak/1810E-II.mzML"
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wget --no-verbose --output-document=T04251505.mzXML "https://massiveproxy.gnps2.org/massiveproxy/MSV000082797/ccms_peak/raw/MTBLS368/T04251505.mzXML"
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wget --no-verbose --output-document=isa_9_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084030/ccms_peak/isa_9_fe.mzML"
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wget --no-verbose --output-document=01308_H02_P013387_B00_N16_R1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083508/ccms_peak/colon/Trypsin_HCD_QExactiveplus/01308_H02_P013387_B00_N16_R1.mzML"
17-
wget --no-verbose --output-document=119A-24.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083461/ccms_peak/mzXML/119A-24.mzML"
18-
wget --no-verbose --output-document=Hui_N2_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084628/ccms_peak/Hui_N2_fe.mzML"
19-
wget --no-verbose --output-document=meoh_water_ms2_1_31_1_395.mzML "https://proteomics2.ucsd.edu/ProteoSAFe/DownloadResultFile?task=2eb041215fdd4f89a2ef91be70752e16&file=workflow_results/spectra/meoh_water_ms2_1_31_1_395.mzML&block=main&process_html=false"
20-
wget --no-verbose --output-document=MMSRG_027.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000088268/peak/Anelize%20and%20Hector/MMSRG_027.mzML"
21-
wget --no-verbose --output-document=featurelist_pos.mgf "https://massiveproxy.gnps2.org/massiveproxy/MSV000086995/updates/2022-01-18_mwang87_e619431a/peak/bahbobeh/featurelist_pos.mgf"
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wget --no-verbose --output-document=GT15A.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000087048/ccms_peak/Green_Tea_manuscript_data/GT15A.mzML"
23-
wget --no-verbose --output-document=PLT2_B1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000088800/ccms_peak/NRRL_PLT2_czapek_solid_raw/PLT2_B1.mzML"
3+
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# Rate limit: at most 10 files/minute => sleep 6s between downloads.
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download() {
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wget --no-verbose --tries=3 --waitretry=5 --output-document="$1" "$2"
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sleep 6
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}
9+
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download GNPS00002_A3_p.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A3_p.mzML"
11+
download GNPS00002_A3_p.mzml "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A3_p.mzML"
12+
download GNPS00002_A10_n.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084494/ccms_peak/raw/GNPS00002_A10_n.mzML"
13+
download QC_0.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000085852/ccms_peak/QC_raw/QC_0.mzML"
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download bld_plt1_07_120_1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000085944/ccms_peak/raw_data/bld_plt1_07_120_1.mzML"
15+
download NS_1x_test.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000087352/updates/2021-05-03_allegraaron_95d2215b/peak/NS_1x_test.mzML"
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download JB_182_2_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084289/ccms_peak/JB_182_2_fe.mzML"
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download S_N2_neutral_Zn.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083387/updates/2019-11-12_allegraaron_e893cb7e/peak/S_N2_neutral_Zn.mzML"
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download gnps-library.json "https://external.gnps2.org/gnpslibrary/GNPS-LIBRARY.json"
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download specs_ms.mgf "https://massive.ucsd.edu/ProteoSAFe/DownloadResultFile?task=5ecfcf81cb3c471698995b194d8246a0&block=main&file=spectra/specs_ms.mgf"
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download 1810E-II.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084691/ccms_peak/1810E-II.mzML"
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download T04251505.mzXML "https://massiveproxy.gnps2.org/massiveproxy/MSV000082797/ccms_peak/raw/MTBLS368/T04251505.mzXML"
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download isa_9_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084030/ccms_peak/isa_9_fe.mzML"
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download 01308_H02_P013387_B00_N16_R1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083508/ccms_peak/colon/Trypsin_HCD_QExactiveplus/01308_H02_P013387_B00_N16_R1.mzML"
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download 119A-24.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000083461/ccms_peak/mzXML/119A-24.mzML"
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download Hui_N2_fe.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000084628/ccms_peak/Hui_N2_fe.mzML"
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download meoh_water_ms2_1_31_1_395.mzML "https://proteomics2.ucsd.edu/ProteoSAFe/DownloadResultFile?task=2eb041215fdd4f89a2ef91be70752e16&file=workflow_results/spectra/meoh_water_ms2_1_31_1_395.mzML&block=main&process_html=false"
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download MMSRG_027.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000088268/peak/Anelize%20and%20Hector/MMSRG_027.mzML"
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download featurelist_pos.mgf "https://massiveproxy.gnps2.org/massiveproxy/MSV000086995/updates/2022-01-18_mwang87_e619431a/peak/bahbobeh/featurelist_pos.mgf"
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download GT15A.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000087048/ccms_peak/Green_Tea_manuscript_data/GT15A.mzML"
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download PLT2_B1.mzML "https://massiveproxy.gnps2.org/massiveproxy/MSV000088800/ccms_peak/NRRL_PLT2_czapek_solid_raw/PLT2_B1.mzML"

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